Monthly Archives: May 2014

10:30a – 4:00p New probes to make: B10-B12 (last of the yellows) C09-C12 (last blue, first 2 blacks) D01-D07 (all the end-to-end blacks) [D08-D12 are Bogdan’s internal blacks] master mix 525 polymerase (25*21) 420 ddH2O 21 of Lib3 (1:50 dilution) … Continue reading →

9:30a – 7:00p Goals Finish progress report limited-cycle RT PCR for new probes enter into database last batch of ~30 probes synthesized Analyze new 2-color data Literature interesting article by Fontana on aging driven by random-gene expression when lacking strong … Continue reading →

11:00a – 12:45a (9:00a-11:00a, volleyball practice). Meeting with Bogdan see notes Bogdan Data: \cajal\AlistairTemp3 Chromatin Data Analysis Chromatin Cropper Coding to do integrate radius of gyration computation integrate flip h/v/transpose options for conventional images fix auto-loading of conventional images (currently … Continue reading →

10:00a – 11:00p STORM imaging F04F03 samples finish staining / washing B05 + new F03-F04 no secondary, F05-F06 no secondary (see labels on wells) cell staining Prep 12 new 18mm coverslips for staining Prep 3 new 40 mm coverslips of … Continue reading →

10:30a – 11:45p Data analysis Launch STORM analysis for bead data crazy transpose now between conventional images and STORM images in F02F03 data. May affect all recent data? To do: Finish fellowship progress report 2 color imaging of other en-locus … Continue reading →

10:00a – 10:00p Polymer sims periodic loops and sticky show more positive slope than just perodic loop model did (substantially). equilibrate slower. observations for yellow small 10-35 kb regions seem to be larger than expected by scaling extrapolated back from … Continue reading →

11:00a – 11:30p Lab Volleyball, 9a-11a Meetings Project 2 weekly meeting, 12p-1:30p Meeting with Ting, 2p-4:30p Kc167 cells mostly tetraploid for all chromosomes (II, III and X). May vary in chrII but do not appear to in recent experiments. ~78% … Continue reading →

10:00a – 10:50p Goals team meeting — need replies for XZ and Tani Stain new yellow domains troubleshooting multi-color Chromatin Analysis preliminary analysis of radius of gyration. wrote code to compute flists (now a Chromatin Function) for old data which … Continue reading →